DPhil Candidate

Wedge group and Church group

University of Oxford, UK

2022 - 2018

• PhD project: Functional and evolutionary characterisation of chromatin organisation in endometrial cancer

Visiting Graduate Student

Ratan group

University of Virginia, USA

2018 - 2017

• Developed SONiCS - a tool for genotyping short tandem repeats (STRs) profiled using capture assays.
• Worked on the Master thesis - Analysis of the mutational burden across gene sets in cancer.

Visiting Graduate Student

Pemberton group

University of Virginia, USA

2017 - 2016

• Worked on Epigenetic regulation in prostate cancer.
• Performed experiments and analyzed data from RNA-seq, ATAC-seq, and ChIP-seq assays.

Research Assistant

Zebrafish Developmental Genomics

IIMCB, Warsaw, Poland

2016 - 2015

• I worked on the project: Elucidating gene regulatory network of zebrafish heart development using genomics.
• I was responsible for both computational and experimental aspects of the project.

DPhil. Candidate, Genomic Medicine and Statistics

Nuffield Department of Medicine, Brasenose College

University of Oxford, UK

2022 - 2018

• PhD fully funded by Wellcome Trust Four-year PhD Studentships in Science

M. Sc. Eng., Biotechnology

Warsaw University of Technology

Warsaw, Poland

2018 - 2015

• Thesis: Analysis of the mutational burden across gene sets in cancer.
• Thesis awarded the best Master thesis in Bioinformatics defended in 2018 title.

B. Sc. Eng., Biotechnology

Warsaw University of Technology

Warsaw, Poland

2015 - 2011

The MLH1 polymorphism rs1800734 and risk of endometrial cancer with microsatellite instability

H. Russell, K. Kedzierska, D. D. Buchanan, R. Thomas, E. Tham, M. Mints, A. Keränen, G. G. Giles, M. C. Southey, R. L. Milne, I. Tomlinson, D. Church, A. B. Spurdle, T. A. O’Mara and A. Lewis

Clinical Epigenetics

2020

Prognostic integrated image-based immune and molecular profiling in early-stage Endometrial Cancer

N. Horeweg, M. de Bruyn, R. A. Nout, E. Stelloo, K. Kedzierska, A. León-Castillo, A. Plat, K. D. Mertz, M. Osse, I. M. Jürgenliemk-Schulz, L. C.H.W. Lutgens, J. J. Jobsen, E. M. van der Steen-Banasik, V. T. Smit, C. L. Creutzberg, T. Bosse, H. W. Nijman, V. H. Koelzer and D. N. Church

Cancer Immunology Research

2020

Dynamics of cardiomyocyte transcriptome and chromatin landscape demarcates key events of heart development

M. Pawlak, K. Z. Kedzierska, M. Migdal, K. A. Nahia, J. A. Ramilowski, L. Bugajski, K. Hashimoto, A. Marconi, K. Piwocka, P. Carninci and C. L. Winata

Genome Research

2019

Genomic analysis of DNA repair genes and androgen signaling in prostate cancer

K. Jividen, K. Z. Kedzierska, C.-S. Yang, K. Szlachta, A. Ratan and B. M. Paschal

BMC Cancer

2018

SONiCS: PCR stutter noise correction in genome-scale microsatellites

K. Z. Kedzierska, L. Gerber, D. Cagnazzi, M. Krützen, A. Ratan, L. Kistler

Bioinformatics

2018

Analysis of the mutational burden across gene sets in cancer

Polish Bioinformatics Society Symposium

Cracow, Poland

2019

• Invited talk

Differential mutation analysis across gene sets in cancers

The Biology of Genomes 2018

Cold Spring Harbor, NY, USA

2018

• Poster

Epigenetic regulation of prostate cancer

Visiting Graduate Traineeship Program Grantees Symposium

Charlottesville, VA, USA

2017

• Talk

Best Master Thesis in Bioinformatics       

N/A

N/A

2019 - 2018

• The Best Master Thesis defended in the field of Bioinformatics in 2018 in Poland.
• Analysis of the mutational burden across gene sets in cancer Master thesis defended at the Warsaw University of Technology

Visiting Graduate Traineeship Program

N/A

N/A

2017 - 2016

• The Visiting Research Graduate Traineeship Program offered 12-month research traineeships for outstanding, qualified students from the life sciences at selected institutions in the United States.

Grasz o Staz

N/A

N/A

2015

• “Grasz o Staz” competition was a national, prestigious and highly competitive (1:25 success rate) scholarship program in Poland organized by PwC.

Online tutorials: Python for Data Science and Introduction to Python

NGSeminars

YouTube

2020

• I led two Python tutorials: Introduction to Python kasia.codes/talk/intro_to_python/ and Python for Data Science kasia.codes/talk/py4ds/.

Introduction to Managing Code with Git

Wellcome Centre for Human Genetics

Oxford, United Kingdom

2020 - 2019

• I led a 2-hour introduction to working with Git. Materials, including slides and exercises are available at kasia.codes/talk/into_to_git/.

Unsupervised learning, Introduction to Python

#NGSchool2019: Machine Learning for Biomedicine

Ostróda, Poland

2019

• Tutor for the Introduction to Python (3 h workshop) and for the Unsupervised learning (1,5 h lecture).
• Materials for the Introduction to Python are available on github

Introduction to R

Wellcome Centre for Human Genetics

Oxford, United Kingdom

2019

• 8 week course in Introduction to R, Data Manipulation, Data Visualisation and RNA-seq data analysis.
• Materials available on github/kzkedziersa/r_intro

ATAC-seq workshop

#NGSchool2017: Single-cell Sequencing

Jachranka, Poland

2017

• Invited speaker
• Materials for the course can be available on gitub.com/kzkedzierska/ATACseq_workshop

Machine Learning Summer School

Imperial College London, University College Londn

London, United Kingdom

2019

Visegrad Grant to organize #NGSchool2020 - postponed until 2021

Visegrad Fund

N/A

2021 - 2020

• 32,190 EUR awarded towards organising #NGSchool2020 and #NGSymposium. Both events are postponed until 2021.

Visegrad Grant to organize #NGSchool2019

Visegrad Fund

N/A

2019

• 23,500 EUR awarded towards organising #NGSchool2019 allowed to keep the cost of attenting the school to the minimum and record the lectures for broader access.

President

NGSchool Society

N/A

2021 - 2018

• The goal of the Society is to promote and support science, with emphasis on computational biology.
• President since 2019; Vice President 2018 - 2019